Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 112 of 144
Found at i:34667780 original size:16 final size:17
Alignment explanation
Indices: 34667759--34667799 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 17
34667749 GAGTTACAAA
34667759 TTTATTT-ATCATA-CAT
1 TTTATTTCATC-TAGCAT
34667775 TTTATTTCATCTAGCAT
1 TTTATTTCATCTAGCAT
34667792 TTATATTT
1 TT-TATTT
34667800 GGGACCTATC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 9 0.41
17 8 0.36
18 5 0.23
ACGTcount: A:0.27, C:0.12, G:0.02, T:0.59
Consensus pattern (17 bp):
TTTATTTCATCTAGCAT
Found at i:34669380 original size:2 final size:2
Alignment explanation
Indices: 34669373--34669399 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
34669363 ATGGTGTATA
34669373 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
34669400 TTTCCACACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:34676867 original size:3 final size:3
Alignment explanation
Indices: 34676859--34676905 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
34676849 TTTACAGAAT
34676859 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
34676906 CCAACATTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:34685394 original size:18 final size:18
Alignment explanation
Indices: 34685371--34685407 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
34685361 GTAGTATTTA
*
34685371 ATTTTCTTTTAATGTTGG
1 ATTTTCTTTTAATATTGG
34685389 ATTTTCTTTTAATATTGG
1 ATTTTCTTTTAATATTGG
34685407 A
1 A
34685408 ATATTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.05, G:0.14, T:0.59
Consensus pattern (18 bp):
ATTTTCTTTTAATATTGG
Found at i:34685416 original size:18 final size:18
Alignment explanation
Indices: 34685374--34685417 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
34685364 GTATTTAATT
* *
34685374 TTCTTTTAATGTTGGATT
1 TTCTTTTAATATTGGATA
34685392 TTCTTTTAATATTGGAATA
1 TTCTTTTAATATTGG-ATA
34685411 TT-TTTTA
1 TTCTTTTA
34685418 GTTCTAGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.23, C:0.05, G:0.11, T:0.61
Consensus pattern (18 bp):
TTCTTTTAATATTGGATA
Found at i:34690806 original size:103 final size:101
Alignment explanation
Indices: 34690581--34690816 Score: 239
Period size: 101 Copynumber: 2.3 Consensus size: 101
34690571 TAATGCCTCC
** * * * *
34690581 ACATGAAGAGGCGACACAAAAAAATTCAAAAAAAATTACTGGTGTCGTCATATTTGGAGTTGGCA
1 ACATGAAGAGGCGACACTGAAAAATTTAAAAAAAATTACTGGTGTCGTCACATCTAGAGTTGGCA
**
34690646 CAAGAGAAATTTTTTTTAATAGATTTTGGTGCCTTT
66 CAAGAGAAATTTTTTTTAATAGATTTTGGTAACTTT
** * * *
34690682 ACATGAAGAGATGATATTGAAAAATTTAAAAAAAA-TACTTGTGTCG-CTACATCTAGAGTTGGC
1 ACATGAAGAGGCGACACTGAAAAATTTAAAAAAAATTACTGGTGTCGTC-ACATCTAGAGTTGGC
*
34690745 ACCAAGAGAAACTTTTTATTTTACT-GATTTTGGTAACTCTT
65 A-CAAGAGAAA--TTTT-TTTTAATAGATTTTGGTAACT-TT
* *
34690786 -GATGAAGAGGCGACACTGAAAAA-GTAAAAAA
1 ACATGAAGAGGCGACACTGAAAAATTTAAAAAA
34690817 GAAAAAATTA
Statistics
Matches: 109, Mismatches: 20, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
99 1 0.01
100 23 0.21
101 37 0.34
102 7 0.06
103 33 0.30
104 8 0.07
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (101 bp):
ACATGAAGAGGCGACACTGAAAAATTTAAAAAAAATTACTGGTGTCGTCACATCTAGAGTTGGCA
CAAGAGAAATTTTTTTTAATAGATTTTGGTAACTTT
Found at i:34691828 original size:19 final size:19
Alignment explanation
Indices: 34691806--34691849 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
34691796 AATTTAATTC
* * *
34691806 ATTAAATATAATTGAATAA
1 ATTAAAAATAAATAAATAA
34691825 ATTAAAAATAAATAAATAA
1 ATTAAAAATAAATAAATAA
34691844 A-TAAAA
1 ATTAAAA
34691850 CTTTTAGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (19 bp):
ATTAAAAATAAATAAATAA
Found at i:34692332 original size:14 final size:16
Alignment explanation
Indices: 34692298--34692334 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
34692288 AAACAATTAT
34692298 TATTTTAAATATAATA
1 TATTTTAAATATAATA
*
34692314 TATTTTTAAT-TAA-A
1 TATTTTAAATATAATA
34692328 TATTTTA
1 TATTTTA
34692335 TTAATGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
14 7 0.37
15 3 0.16
16 9 0.47
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATTTTAAATATAATA
Found at i:34692738 original size:5 final size:5
Alignment explanation
Indices: 34692721--34692758 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
34692711 CATGTATCGC
*
34692721 AAAGA AAAAA AAAGA AAAGA AAAG- AAAGA AAAGTA AAA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAG-A AAA
34692759 CAAATAGGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
4 4 0.14
5 21 0.72
6 4 0.14
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.03
Consensus pattern (5 bp):
AAAGA
Found at i:34692748 original size:14 final size:15
Alignment explanation
Indices: 34692721--34692758 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
34692711 CATGTATCGC
34692721 AAAGAAAAAAAAAGA
1 AAAGAAAAAAAAAGA
*
34692736 AAAG-AAAAGAAAGA
1 AAAGAAAAAAAAAGA
34692750 AAAGTAAAA
1 AAAG-AAAA
34692759 CAAATAGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 13 0.65
15 4 0.20
16 3 0.15
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.03
Consensus pattern (15 bp):
AAAGAAAAAAAAAGA
Found at i:34693713 original size:30 final size:30
Alignment explanation
Indices: 34693660--34693721 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
34693650 GGTCTATATA
*
34693660 TTTATAATTTTTAAAGGATTAAATCA-AATT
1 TTTATAATTTTTAAAGGACTAAAT-ATAATT
*
34693690 TTTATAA-TTTTAAAGGGGCTAAATATAATT
1 TTTATAATTTTTAAA-GGACTAAATATAATT
34693720 TT
1 TT
34693722 ACCTTTACTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 8 0.29
30 20 0.71
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.47
Consensus pattern (30 bp):
TTTATAATTTTTAAAGGACTAAATATAATT
Found at i:34695995 original size:31 final size:31
Alignment explanation
Indices: 34695938--34695999 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
34695928 CCAACTTAAG
* *
34695938 AAAAAGTATCAATTCTAAGTGCCAAATTAGA
1 AAAAAGTATCAATTCTAAATACCAAATTAGA
*
34695969 AAAAAGTATCAAATT-TAAATATCAAATTAGA
1 AAAAAGTATC-AATTCTAAATACCAAATTAGA
34696000 CCCAAAACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 23 0.85
32 4 0.15
ACGTcount: A:0.53, C:0.10, G:0.10, T:0.27
Consensus pattern (31 bp):
AAAAAGTATCAATTCTAAATACCAAATTAGA
Found at i:34701322 original size:9 final size:9
Alignment explanation
Indices: 34701308--34701441 Score: 66
Period size: 9 Copynumber: 15.0 Consensus size: 9
34701298 TTAAATTTCT
34701308 TATTATTAC
1 TATTATTAC
34701317 TATTATT--
1 TATTATTAC
*
34701324 T-TTATTCC
1 TATTATTAC
* *
34701332 TTTTACTACC
1 TATTATTA-C
* *
34701342 TATTATCAA
1 TATTATTAC
34701351 TATATTATTAC
1 TA--TTATTAC
*
34701362 TA-TAGCTAC
1 TATTA-TTAC
34701371 TATTATTA-
1 TATTATTAC
34701379 TATTATTA-
1 TATTATTAC
* *
34701387 TCATCATCA-
1 T-ATTATTAC
*
34701396 TCATTATTAT
1 T-ATTATTAC
*
34701406 TATTATTAT
1 TATTATTAC
*
34701415 TATTATTAT
1 TATTATTAC
34701424 TATTATTAC
1 TATTATTAC
34701433 TATTATTAC
1 TATTATTAC
34701442 ACTTATATGT
Statistics
Matches: 100, Mismatches: 15, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
6 5 0.05
7 1 0.01
8 12 0.12
9 66 0.66
10 9 0.09
11 7 0.07
ACGTcount: A:0.32, C:0.12, G:0.01, T:0.55
Consensus pattern (9 bp):
TATTATTAC
Found at i:34701377 original size:3 final size:3
Alignment explanation
Indices: 34701371--34701440 Score: 88
Period size: 3 Copynumber: 23.7 Consensus size: 3
34701361 CTATAGCTAC
* * * *
34701371 TAT TAT TA- TAT TAT TAT CAT CAT CAT CAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
34701418 TAT TAT TAT TAT TAC TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
34701441 CACTTATATG
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
2 2 0.03
3 60 0.97
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:34701447 original size:9 final size:9
Alignment explanation
Indices: 34701353--34701441 Score: 69
Period size: 9 Copynumber: 10.0 Consensus size: 9
34701343 ATTATCAATA
34701353 TATTATTAC
1 TATTATTAC
*
34701362 TA-TAGCTAC
1 TATTA-TTAC
34701371 TATTATTA-
1 TATTATTAC
34701379 TATTATTA-
1 TATTATTAC
* *
34701387 TCATCATCA-
1 T-ATTATTAC
*
34701396 TCATTATTAT
1 T-ATTATTAC
*
34701406 TATTATTAT
1 TATTATTAC
*
34701415 TATTATTAT
1 TATTATTAC
34701424 TATTATTAC
1 TATTATTAC
34701433 TATTATTAC
1 TATTATTAC
34701442 ACTTATATGT
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
8 11 0.16
9 55 0.80
10 3 0.04
ACGTcount: A:0.34, C:0.10, G:0.01, T:0.55
Consensus pattern (9 bp):
TATTATTAC
Found at i:34708291 original size:20 final size:20
Alignment explanation
Indices: 34708266--34708308 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
34708256 TAATGTTGAC
34708266 TAAAAC-TGGATTAAGCTAAT
1 TAAAACATGG-TTAAGCTAAT
*
34708286 TAAAACATGGTTAAGTTAAT
1 TAAAACATGGTTAAGCTAAT
34708306 TAA
1 TAA
34708309 TTTAGGTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.47, C:0.07, G:0.14, T:0.33
Consensus pattern (20 bp):
TAAAACATGGTTAAGCTAAT
Found at i:34709708 original size:13 final size:13
Alignment explanation
Indices: 34709690--34709717 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
34709680 TTTTGAATGG
34709690 TTGATTGATTAGT
1 TTGATTGATTAGT
34709703 TTGATTGATTAGT
1 TTGATTGATTAGT
34709716 TT
1 TT
34709718 ATACATGAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.57
Consensus pattern (13 bp):
TTGATTGATTAGT
Found at i:34710849 original size:22 final size:22
Alignment explanation
Indices: 34710824--34710868 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
34710814 GGAGGGGCTC
34710824 ATCTCTTATAAGGACTAAGATA
1 ATCTCTTATAAGGACTAAGATA
34710846 ATCTCTTATAAGGACTAAGATA
1 ATCTCTTATAAGGACTAAGATA
34710868 A
1 A
34710869 GTAAGTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.31
Consensus pattern (22 bp):
ATCTCTTATAAGGACTAAGATA
Found at i:34712872 original size:62 final size:58
Alignment explanation
Indices: 34712700--34712874 Score: 181
Period size: 60 Copynumber: 2.9 Consensus size: 58
34712690 AAAAAACACT
* *
34712700 AAAATAAATTTTTAAACAATAAAATTTATATATTATTACGAGATGACCATACTAATTGAG
1 AAAAT-AATTTTTAAACAAT-AAATTTATATATTATCATGAGATGACCATACTAATTGAG
* * *
34712760 AAAATAATTCTTCAAACAATATATTGTATATATTATCATGAGATCG-CCATACTAATTGATTT
1 AAAATAATT-TTTAAACAATAAATT-TATATATTATCATGAGAT-GACCATACTAATTGA--G
* * * *
34712822 ATCAATAATTTTTAAACAATAGATTATATATATTATCATAAAATGACCATACT
1 A-AAATAATTTTTAAACAATAAATT-TATATATTATCATGAGATGACCATACT
34712875 GTATCAAATA
Statistics
Matches: 97, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
59 8 0.08
60 43 0.44
61 2 0.02
62 37 0.38
63 7 0.07
ACGTcount: A:0.45, C:0.11, G:0.07, T:0.37
Consensus pattern (58 bp):
AAAATAATTTTTAAACAATAAATTTATATATTATCATGAGATGACCATACTAATTGAG
Found at i:34714701 original size:20 final size:20
Alignment explanation
Indices: 34714649--34714701 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
34714639 ATATTTCATA
**
34714649 TATGTATGTATATAAGAATG
1 TATGTATGTATGCAAGAATG
* * *
34714669 TATGCATGCATGCAAGCATG
1 TATGTATGTATGCAAGAATG
34714689 TATGTATGTATGC
1 TATGTATGTATGC
34714702 TTGTTTTTTA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.36
Consensus pattern (20 bp):
TATGTATGTATGCAAGAATG
Found at i:34718792 original size:29 final size:29
Alignment explanation
Indices: 34718755--34718811 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
34718745 ATTGTGAAAA
*
34718755 ATTACAAAATGATCACCTAACTATTAAAC
1 ATTACAAAATAATCACCTAACTATTAAAC
* **
34718784 ATTATAAAATAATCATTTAACTATTAAA
1 ATTACAAAATAATCACCTAACTATTAAA
34718812 TTTTGTATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.51, C:0.14, G:0.02, T:0.33
Consensus pattern (29 bp):
ATTACAAAATAATCACCTAACTATTAAAC
Found at i:34718858 original size:26 final size:26
Alignment explanation
Indices: 34718804--34718856 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
34718794 AATCATTTAA
*
34718804 CTATTAAATTTTGTATTTTGATCACC
1 CTATTAAATTTTGTATTTTCATCACC
*
34718830 CTATTCAATTTTGTATTTTTCATCACC
1 CTATTAAATTTTGTA-TTTTCATCACC
34718857 TAACTGTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.25, C:0.19, G:0.06, T:0.51
Consensus pattern (26 bp):
CTATTAAATTTTGTATTTTCATCACC
Found at i:34723936 original size:23 final size:23
Alignment explanation
Indices: 34723906--34723951 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
34723896 ACAGTTAATG
34723906 CATTTTGTAACAGTTATGAAATA
1 CATTTTGTAACAGTTATGAAATA
*
34723929 CATTTTGTAATAGTTATGAAATA
1 CATTTTGTAACAGTTATGAAATA
34723952 AATTGGCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.39, C:0.07, G:0.13, T:0.41
Consensus pattern (23 bp):
CATTTTGTAACAGTTATGAAATA
Found at i:34728967 original size:44 final size:42
Alignment explanation
Indices: 34728919--34729068 Score: 151
Period size: 44 Copynumber: 3.4 Consensus size: 42
34728909 CAGCTCTACT
34728919 GCAACTTCAGAGAGATAAGACTTGTATCTTTAACCTGCTCCACA
1 GCAACTTCAG-GAGATAAGACTT-TATCTTTAACCTGCTCCACA
* * * *
34728963 GCAACTTCAGGAGATAAG-GTTAATGGCTTCT-ATCTGCTCCACT
1 GCAACTTCAGGAGATAAGACTTTAT--CTT-TAACCTGCTCCACA
* * *
34729006 GTAACTTCAGAGAGATAAGACTTATATCTTCAACCTACTCCACA
1 GCAACTTCAG-GAGATAAGACTT-TATCTTTAACCTGCTCCACA
34729050 GCAACTTCAGGCAGATAAG
1 GCAACTTCAGG-AGATAAG
34729069 GTTAATGGCT
Statistics
Matches: 86, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
41 2 0.02
42 2 0.02
43 31 0.36
44 47 0.55
45 2 0.02
46 2 0.02
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (42 bp):
GCAACTTCAGGAGATAAGACTTTATCTTTAACCTGCTCCACA
Found at i:34729012 original size:87 final size:87
Alignment explanation
Indices: 34728858--34729113 Score: 323
Period size: 87 Copynumber: 2.9 Consensus size: 87
34728848 AGGATCGTAA
* * * * * ** * * *
34728858 CTTCCACCTGCCCCACTGCAAGTTCAGGGGGATAAGGTTTGTGGCTTCCATCAGCTCTACTGCAA
1 CTTCAACCTGCTCCACAGCAACTTCA-GGAGATAAGGTTAATGGCTTCCATCTGCTCCACTGTAA
*
34728923 CTTCAGAGAGATAAGACTTGTAT
65 CTTCAGAGAGATAAGACTTATAT
* *
34728946 CTTTAACCTGCTCCACAGCAACTTCAGGAGATAAGGTTAATGGCTTCTATCTGCTCCACTGTAAC
1 CTTCAACCTGCTCCACAGCAACTTCAGGAGATAAGGTTAATGGCTTCCATCTGCTCCACTGTAAC
34729011 TTCAGAGAGATAAGACTTATAT
66 TTCAGAGAGATAAGACTTATAT
* * * *
34729033 CTTCAACCTACTCCACAGCAACTTCAGGCAGATAAGGTTAATGGCTTCCATCTACTCCATTATAA
1 CTTCAACCTGCTCCACAGCAACTTCAGG-AGATAAGGTTAATGGCTTCCATCTGCTCCACTGTAA
* *
34729098 CTTCGGGGAGATAAGA
65 CTTCAGAGAGATAAGA
34729114 TTCGCCATGA
Statistics
Matches: 146, Mismatches: 21, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
87 79 0.54
88 67 0.46
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (87 bp):
CTTCAACCTGCTCCACAGCAACTTCAGGAGATAAGGTTAATGGCTTCCATCTGCTCCACTGTAAC
TTCAGAGAGATAAGACTTATAT
Found at i:34729088 original size:44 final size:43
Alignment explanation
Indices: 34728956--34729091 Score: 159
Period size: 44 Copynumber: 3.1 Consensus size: 43
34728946 CTTTAACCTG
* *
34728956 CTCCACAGCAACTTCAGGAGATAAGGTTAATGGCTTCTATCTG
1 CTCCACAGCAACTTCAGGAGATAAGGTTAATGGCTTCAATCTA
* * * *
34728999 CTCCACTGTAACTTCAGAGAGATAAGACTTATAT--CTTCAACCTA
1 CTCCACAGCAACTTCAG-GAGATAAG-GTTA-ATGGCTTCAATCTA
*
34729043 CTCCACAGCAACTTCAGGCAGATAAGGTTAATGGCTTCCATCTA
1 CTCCACAGCAACTTCAGG-AGATAAGGTTAATGGCTTCAATCTA
34729087 CTCCA
1 CTCCA
34729092 TTATAACTTC
Statistics
Matches: 76, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
42 2 0.03
43 19 0.25
44 50 0.66
45 3 0.04
46 2 0.03
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (43 bp):
CTCCACAGCAACTTCAGGAGATAAGGTTAATGGCTTCAATCTA
Found at i:34729100 original size:44 final size:42
Alignment explanation
Indices: 34728965--34729112 Score: 129
Period size: 44 Copynumber: 3.4 Consensus size: 42
34728955 GCTCCACAGC
* * *
34728965 AACTTCAGGAGATAAGGTTAATGGCTTCTATCTGCTCCACTGT
1 AACTTCAGGAGATAAGGTTAATGGCTTCAATCTACTCCA-TAT
* * * *
34729008 AACTTCAGAGAGATAAGACTTATAT--CTTCAACCTACTCCACAGC
1 AACTTCAG-GAGATAAG-GTTA-ATGGCTTCAATCTACTCCATA-T
*
34729052 AACTTCAGGCAGATAAGGTTAATGGCTTCCATCTACTCCATTAT
1 AACTTCAGG-AGATAAGGTTAATGGCTTCAATCTACTCCA-TAT
*
34729096 AACTTCGGGGAGATAAG
1 AACTTC-AGGAGATAAG
34729113 ATTCGCCATG
Statistics
Matches: 83, Mismatches: 13, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
42 2 0.02
43 12 0.14
44 61 0.73
45 6 0.07
46 2 0.02
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.28
Consensus pattern (42 bp):
AACTTCAGGAGATAAGGTTAATGGCTTCAATCTACTCCATAT
Found at i:34729258 original size:45 final size:45
Alignment explanation
Indices: 34729194--34729352 Score: 139
Period size: 44 Copynumber: 3.6 Consensus size: 45
34729184 CCTGTTCCAT
* * *
34729194 TGCAACTTCAGGGAAATAAGATTTATTATCTTCAATCTGCTTCAC
1 TGCAACTTCAGGGAGATAAGATTTGTAATCTTCAATCTGCTTCAC
* *
34729239 TGCAACTTCAGGGAGATAAGACTTGGTAAT-TTCAACCTGC-TCTAC
1 TGCAACTTCAGGGAGATAAGA-TTTGTAATCTTCAATCTGCTTC-AC
** * * ** * *
34729284 -GCATA-TTCAGATAGATGAGGTTTGCGA-CTTCAATCTGCTCCGC
1 TGCA-ACTTCAGGGAGATAAGATTTGTAATCTTCAATCTGCTTCAC
34729327 TGCAACTTCAGGGAGATAAGATTTGT
1 TGCAACTTCAGGGAGATAAGATTTGT
34729353 CATGGTAACT
Statistics
Matches: 87, Mismatches: 20, Indels: 15
0.71 0.16 0.12
Matches are distributed among these distances:
43 15 0.17
44 35 0.40
45 32 0.37
46 5 0.06
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (45 bp):
TGCAACTTCAGGGAGATAAGATTTGTAATCTTCAATCTGCTTCAC
Found at i:34736786 original size:19 final size:20
Alignment explanation
Indices: 34736764--34736808 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
34736754 TCGTGAAACT
*
34736764 TAATGCATATG-ATGAAATG
1 TAATGCAGATGAATGAAATG
34736783 TAATGCAGATGAATGAAATG
1 TAATGCAGATGAATGAAATG
34736803 -AATGCA
1 TAATGCA
34736809 AAAAGAGGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.27
Consensus pattern (20 bp):
TAATGCAGATGAATGAAATG
Found at i:34744602 original size:15 final size:15
Alignment explanation
Indices: 34744582--34744620 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
34744572 ACTATTTTAA
*
34744582 GGTTTATGGATTATG
1 GGTTTAGGGATTATG
34744597 GGTTTAGGGATTATG
1 GGTTTAGGGATTATG
*
34744612 GGTTAAGGG
1 GGTTTAGGG
34744621 TGGTTTAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.21, C:0.00, G:0.41, T:0.38
Consensus pattern (15 bp):
GGTTTAGGGATTATG
Found at i:34744602 original size:22 final size:22
Alignment explanation
Indices: 34744577--34744621 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
34744567 AAGTTACTAT
* *
34744577 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATGGATTAAGGG
* *
34744599 TTTAGGGATTATGGGTTAAGGG
1 TTTAAGGATTATGGATTAAGGG
34744621 T
1 T
34744622 GGTTTAAGGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.36, T:0.42
Consensus pattern (22 bp):
TTTAAGGATTATGGATTAAGGG
Found at i:34744675 original size:14 final size:14
Alignment explanation
Indices: 34744658--34744727 Score: 59
Period size: 14 Copynumber: 4.9 Consensus size: 14
34744648 AAGGGTCAGG
34744658 GGTTTATGGTTTAA
1 GGTTTATGGTTTAA
* *
34744672 GGTTTATGTTTTAT
1 GGTTTATGGTTTAA
** *
34744686 GACTCATGGTTTAA
1 GGTTTATGGTTTAA
* *
34744700 GGTTTAGGGATTAA
1 GGTTTATGGTTTAA
*
34744714 GAGTTTAGGGTTTA
1 G-GTTTATGGTTTA
34744728 GATTAATTAG
Statistics
Matches: 42, Mismatches: 13, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
14 31 0.74
15 11 0.26
ACGTcount: A:0.23, C:0.03, G:0.29, T:0.46
Consensus pattern (14 bp):
GGTTTATGGTTTAA
Found at i:34744956 original size:21 final size:21
Alignment explanation
Indices: 34744932--34744978 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
34744922 TTAGGGTGTA
34744932 GGTTTATGGTCTAAGATTTAG
1 GGTTTATGGTCTAAGATTTAG
* *
34744953 GGTTTATGGTCTAGGATTTTG
1 GGTTTATGGTCTAAGATTTAG
34744974 GGTTT
1 GGTTT
34744979 GAAGTTTGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.17, C:0.04, G:0.32, T:0.47
Consensus pattern (21 bp):
GGTTTATGGTCTAAGATTTAG
Found at i:34745260 original size:21 final size:20
Alignment explanation
Indices: 34745232--34745273 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
34745222 GATTAGGGTG
34745232 TAGGTTTATGGTCTAAGATT
1 TAGGTTTATGGTCTAAGATT
*
34745252 TAGGATTTATGGTCTAGGATT
1 TAGG-TTTATGGTCTAAGATT
34745273 T
1 T
34745274 TGGGTTTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.24, C:0.05, G:0.26, T:0.45
Consensus pattern (20 bp):
TAGGTTTATGGTCTAAGATT
Found at i:34745960 original size:7 final size:7
Alignment explanation
Indices: 34745944--34745975 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
34745934 AATACAATTT
34745944 AAAAAT-
1 AAAAATA
34745950 AAAAATA
1 AAAAATA
34745957 AAAAATA
1 AAAAATA
34745964 AAAAATA
1 AAAAATA
34745971 AAAAA
1 AAAAA
34745976 CTTAAAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:34746316 original size:14 final size:13
Alignment explanation
Indices: 34746288--34746323 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
34746278 CCCATTGAAA
*
34746288 CCCCTAAAATTTC
1 CCCCTAAAATTTT
34746301 CCCCTAAAATTTT
1 CCCCTAAAATTTT
34746314 CCCCTAAAAT
1 CCCCTAAAAT
34746324 CAGTATCCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.36, G:0.00, T:0.31
Consensus pattern (13 bp):
CCCCTAAAATTTT
Found at i:34747145 original size:3 final size:3
Alignment explanation
Indices: 34747137--34747166 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
34747127 TGTTAGGGAG
*
34747137 TTA TTA TTA TTA TTA TTA TAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
34747167 ATATAATTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:34750022 original size:115 final size:115
Alignment explanation
Indices: 34749877--34750324 Score: 880
Period size: 115 Copynumber: 3.9 Consensus size: 115
34749867 GGCTGTATAG
34749877 ATGTTGTTAATTGAAATGTTAAAGTGCTGCAAATTGAAGTGTTTTAATGCTGTAAATTGAAGTGT
1 ATGTTGTTAATTGAAATGTTAAAGTGCTGCAAATTGAAGTGTTTTAATGCTGTAAATTGAAGTGT
34749942 TAAAGTGTTGCAAGTTAAAGTGTTTGAATGCTGTAAATTGAAGTGTTTAA
66 TAAAGTGTTGCAAGTTAAAGTGTTTGAATGCTGTAAATTGAAGTGTTTAA
34749992 ATGTTGTTAATTGAAATGTTAAAGTGCTGCAAATTGAAGTGTTTTAATGCTGTAAATTGAAGTGT
1 ATGTTGTTAATTGAAATGTTAAAGTGCTGCAAATTGAAGTGTTTTAATGCTGTAAATTGAAGTGT
34750057 TAAAGTGTTGCAAGTTAAAGTGTTTGAATGCTGTAAATTGAAGTGTTTAA
66 TAAAGTGTTGCAAGTTAAAGTGTTTGAATGCTGTAAATTGAAGTGTTTAA
34750107 ATGTTGTTAATTGAAATGTTAAAGTGCTGCAAATTGAAGTGTTTTAATGCTGTAAATTGAAGTGT
1 ATGTTGTTAATTGAAATGTTAAAGTGCTGCAAATTGAAGTGTTTTAATGCTGTAAATTGAAGTGT
34750172 TAAAGTGTTGCAAGTTAAAGTGTTTGAATGCTGTAAATTGAAGTGTTTAA
66 TAAAGTGTTGCAAGTTAAAGTGTTTGAATGCTGTAAATTGAAGTGTTTAA
34750222 ATGTTGTTAATTGAAATGTTAAAGTGCTGCAAATTGAAGTGTTTTAATGCTGTAAATTGAAGTGT
1 ATGTTGTTAATTGAAATGTTAAAGTGCTGCAAATTGAAGTGTTTTAATGCTGTAAATTGAAGTGT
34750287 TAAAGTGTTGCAAGTTAAAGTGTTTGAACTGCT-TAAAT
66 TAAAGTGTTGCAAGTTAAAGTGTTTGAA-TGCTGTAAAT
34750325 GTTGCACATT
Statistics
Matches: 332, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
115 328 0.99
116 4 0.01
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.39
Consensus pattern (115 bp):
ATGTTGTTAATTGAAATGTTAAAGTGCTGCAAATTGAAGTGTTTTAATGCTGTAAATTGAAGTGT
TAAAGTGTTGCAAGTTAAAGTGTTTGAATGCTGTAAATTGAAGTGTTTAA
Found at i:34750349 original size:12 final size:12
Alignment explanation
Indices: 34750332--34750356 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34750322 AATGTTGCAC
34750332 ATTGAAGTGTTT
1 ATTGAAGTGTTT
34750344 ATTGAAGTGTTT
1 ATTGAAGTGTTT
34750356 A
1 A
34750357 GTTGCTGGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (12 bp):
ATTGAAGTGTTT
Found at i:34750541 original size:23 final size:23
Alignment explanation
Indices: 34749785--34750541 Score: 442
Period size: 23 Copynumber: 33.0 Consensus size: 23
34749775 TATTAGTTGT
*
34749785 AATGTTGCAAATTGAAGTGTTTA
1 AATGCTGCAAATTGAAGTGTTTA
* *
34749808 AGTACTGCAAATTGAAGTGTTTA
1 AATGCTGCAAATTGAAGTGTTTA
** *
34749831 GTTGCTGGAAATTG-AGATGTTT-
1 AATGCTGCAAATTGAAG-TGTTTA
* * * * *
34749853 TATCACTG-TAATTG-GGCTGTATA
1 AAT-GCTGCAAATTGAAG-TGTTTA
* * ** *
34749876 GATGTTGTTAATTGAAATG-TTA
1 AATGCTGCAAATTGAAGTGTTTA
*
34749898 AAGTGCTGCAAATTGAAGTGTTTT
1 AA-TGCTGCAAATTGAAGTGTTTA
*
34749922 AATGCTGTAAATTGAAGTG-TTA
1 AATGCTGCAAATTGAAGTGTTTA
* * * *
34749944 AAGTGTTGCAAGTTAAAGTGTTTG
1 AA-TGCTGCAAATTGAAGTGTTTA
*
34749968 AATGCTGTAAATTGAAGTGTTTA
1 AATGCTGCAAATTGAAGTGTTTA
* ** *
34749991 AATGTTGTTAATTGAAATG-TTA
1 AATGCTGCAAATTGAAGTGTTTA
*
34750013 AAGTGCTGCAAATTGAAGTGTTTT
1 AA-TGCTGCAAATTGAAGTGTTTA
*
34750037 AATGCTGTAAATTGAAGTG-TTA
1 AATGCTGCAAATTGAAGTGTTTA
* * * *
34750059 AAGTGTTGCAAGTTAAAGTGTTTG
1 AA-TGCTGCAAATTGAAGTGTTTA
*
34750083 AATGCTGTAAATTGAAGTGTTTA
1 AATGCTGCAAATTGAAGTGTTTA
* ** *
34750106 AATGTTGTTAATTGAAATG-TTA
1 AATGCTGCAAATTGAAGTGTTTA
*
34750128 AAGTGCTGCAAATTGAAGTGTTTT
1 AA-TGCTGCAAATTGAAGTGTTTA
*
34750152 AATGCTGTAAATTGAAGTG-TTA
1 AATGCTGCAAATTGAAGTGTTTA
* * * *
34750174 AAGTGTTGCAAGTTAAAGTGTTTG
1 AA-TGCTGCAAATTGAAGTGTTTA
*
34750198 AATGCTGTAAATTGAAGTGTTTA
1 AATGCTGCAAATTGAAGTGTTTA
* ** *
34750221 AATGTTGTTAATTGAAATG-TTA
1 AATGCTGCAAATTGAAGTGTTTA
*
34750243 AAGTGCTGCAAATTGAAGTGTTTT
1 AA-TGCTGCAAATTGAAGTGTTTA
*
34750267 AATGCTGTAAATTGAAGTG-TTA
1 AATGCTGCAAATTGAAGTGTTTA
* * *
34750289 AAGTGTTGCAAGTTAAAGTGTTTGA
1 AA-TGCTGCAAATTGAAGTGTTT-A
* * * ** *
34750314 ACTGCT-TAAATGTTGCA--CATTG
1 AATGCTGCAAA--TTGAAGTGTTTA
***
34750336 AA-G-TGTTTATTGAAGTGTTTA
1 AATGCTGCAAATTGAAGTGTTTA
** * *
34750357 GTTGCTGGACATTG-AGATGTTT-
1 AATGCTGCAAATTGAAG-TGTTTA
* * * * *
34750379 TATCTCTG-TAATTGAGGTGTATA
1 AAT-GCTGCAAATTGAAGTGTTTA
* **
34750402 AATGTTGTTAATTG-AGATG-TTA
1 AATGCTGCAAATTGAAG-TGTTTA
*
34750424 AAGTGCTGCAAATTGAAGTGTTAA
1 AA-TGCTGCAAATTGAAGTGTTTA
*
34750448 AAGTGCTGCAAATTGAAGTGTTTG
1 AA-TGCTGCAAATTGAAGTGTTTA
* *
34750472 AATACTGCAAATTGAAGTCTTTA
1 AATGCTGCAAATTGAAGTGTTTA
* * *
34750495 AATGTTGTAAATTGAAGTGCTTA
1 AATGCTGCAAATTGAAGTGTTTA
*
34750518 AATGTTGCAAATTGAAGTGTTTA
1 AATGCTGCAAATTGAAGTGTTTA
34750541 A
1 A
34750542 GTACTTATTT
Statistics
Matches: 555, Mismatches: 141, Indels: 76
0.72 0.18 0.10
Matches are distributed among these distances:
19 4 0.01
20 1 0.00
21 5 0.01
22 69 0.12
23 410 0.74
24 61 0.11
25 5 0.01
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.39
Consensus pattern (23 bp):
AATGCTGCAAATTGAAGTGTTTA
Found at i:34751262 original size:43 final size:41
Alignment explanation
Indices: 34751214--34751308 Score: 129
Period size: 42 Copynumber: 2.2 Consensus size: 41
34751204 TAATTTTTTT
*
34751214 TAAAGGTCATATTCTTTAGCGGCGTTTGT-GAGAAAAACGTCGC
1 TAAAGGTCAT-TT-TATAGCGGCGTTTGTAG-GAAAAACGTCGC
*
34751257 TAAAGGTCCATTTTATAGCGGCGTTTGTAGGAAAAGCGTCGC
1 TAAAGGT-CATTTTATAGCGGCGTTTGTAGGAAAAACGTCGC
34751299 TAAAGGTCAT
1 TAAAGGTCAT
34751309 GACTTTTAGT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
41 3 0.06
42 32 0.67
43 10 0.21
44 3 0.06
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (41 bp):
TAAAGGTCATTTTATAGCGGCGTTTGTAGGAAAAACGTCGC
Found at i:34751355 original size:43 final size:44
Alignment explanation
Indices: 34751298--34751413 Score: 139
Period size: 43 Copynumber: 2.7 Consensus size: 44
34751288 AAAAGCGTCG
* * * *
34751298 CTAAAGGTCATGACTTTTAGTGGCGCTTTTCCC-ACAAACGCCG
1 CTAAAAGTCATGACTTTTAGCGGCGCTTTTCCCAACAAAAGCCA
* *
34751341 CTAAAAGT-ACTGACTTTTAGCGGCAC-TTCCCCAACAAAAGCCA
1 CTAAAAGTCA-TGACTTTTAGCGGCGCTTTTCCCAACAAAAGCCA
*
34751384 CTAAAAGTCATGACTTTTAGCGGCGTTTTT
1 CTAAAAGTCATGACTTTTAGCGGCGCTTTT
34751414 TGTGGCGCTT
Statistics
Matches: 60, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
42 6 0.10
43 51 0.85
44 3 0.05
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (44 bp):
CTAAAAGTCATGACTTTTAGCGGCGCTTTTCCCAACAAAAGCCA
Found at i:34754370 original size:47 final size:48
Alignment explanation
Indices: 34754318--34754481 Score: 217
Period size: 47 Copynumber: 3.5 Consensus size: 48
34754308 TGGTTAGACC
* *
34754318 ATGGCAACA-TGTGATATGTGATTTCTGTATAAGACCATAGCTGGGAT
1 ATGGCATCAGTGTGATATGTGATTTCTGTATAAGACCATATCTGGGAT
* * * *
34754365 ATGGCATTAGTGTGATATGAGCTTTC-GTATAAAACCATATCTGGGAT
1 ATGGCATCAGTGTGATATGTGATTTCTGTATAAGACCATATCTGGGAT
* * * *
34754412 ATGGCATCGGTATGATATGTG-CTTCTGTGTAAGACCATATCTGGGAT
1 ATGGCATCAGTGTGATATGTGATTTCTGTATAAGACCATATCTGGGAT
34754459 ATGGCATCAGTGTGATATGTGAT
1 ATGGCATCAGTGTGATATGTGAT
34754482 CCGTGTAAGA
Statistics
Matches: 98, Mismatches: 16, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
46 3 0.03
47 81 0.83
48 14 0.14
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.34
Consensus pattern (48 bp):
ATGGCATCAGTGTGATATGTGATTTCTGTATAAGACCATATCTGGGAT
Found at i:34757596 original size:12 final size:12
Alignment explanation
Indices: 34757579--34757603 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34757569 AAGATGAGCA
34757579 TGATGAGCATAT
1 TGATGAGCATAT
34757591 TGATGAGCATAT
1 TGATGAGCATAT
34757603 T
1 T
34757604 AGAGTAGTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (12 bp):
TGATGAGCATAT
Found at i:34760151 original size:2 final size:2
Alignment explanation
Indices: 34760144--34760172 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
34760134 TTGTTTGAAT
34760144 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
34760173 TTTTTGTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:34771423 original size:3 final size:3
Alignment explanation
Indices: 34771415--34771451 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
34771405 ACCGAAACTC
34771415 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
34771452 TGCAACAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:34773748 original size:20 final size:20
Alignment explanation
Indices: 34773711--34773749 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
34773701 AAATTTATGT
*
34773711 TTTTGGATTTTTTTTTAAAA
1 TTTTGGATTTTTTCTTAAAA
34773731 TTTT-GATTTTTCTCTTAAA
1 TTTTGGATTTTT-TCTTAAA
34773750 CTTATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.23, C:0.05, G:0.08, T:0.64
Consensus pattern (20 bp):
TTTTGGATTTTTTCTTAAAA
Found at i:34794001 original size:40 final size:40
Alignment explanation
Indices: 34793896--34794232 Score: 547
Period size: 40 Copynumber: 8.5 Consensus size: 40
34793886 CGGATGATAA
* *
34793896 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
34793936 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
34793975 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
34794015 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
34794055 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
34794095 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
34794135 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
34794175 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
34794215 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
34794233 TACTTGGTTT
Statistics
Matches: 286, Mismatches: 8, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
39 51 0.18
40 235 0.82
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:34801590 original size:12 final size:12
Alignment explanation
Indices: 34801575--34801615 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
34801565 AAATTACAGT
34801575 AAAAATTATTTA
1 AAAAATTATTTA
34801587 AAAAATTATTTA
1 AAAAATTATTTA
*
34801599 AAATATT-TTTA
1 AAAAATTATTTA
34801610 AAAAAT
1 AAAAAT
34801616 AAATCTGCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
11 9 0.33
12 18 0.67
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
AAAAATTATTTA
Found at i:34803590 original size:31 final size:30
Alignment explanation
Indices: 34803552--34803612 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 30
34803542 AAAACCAACC
*
34803552 TATAATTACTTGTTTAGTGGTAGTTTTAAAG
1 TATAATTACTTGTTTAGTAGTAG-TTTAAAG
34803583 TATAATTACTTGTTTAGTAGTAGTTTAAAG
1 TATAATTACTTGTTTAGTAGTAGTTTAAAG
34803613 ACTTATTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 7 0.24
31 22 0.76
ACGTcount: A:0.31, C:0.03, G:0.18, T:0.48
Consensus pattern (30 bp):
TATAATTACTTGTTTAGTAGTAGTTTAAAG
Found at i:34806857 original size:13 final size:11
Alignment explanation
Indices: 34806826--34806854 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
34806816 TTCCCTCCTC
34806826 CTCTCCCTCTT
1 CTCTCCCTCTT
34806837 CTCTCCCTCTT
1 CTCTCCCTCTT
34806848 CTCTCCC
1 CTCTCCC
34806855 CCTTTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (11 bp):
CTCTCCCTCTT
Found at i:34807330 original size:3 final size:3
Alignment explanation
Indices: 34807324--34807449 Score: 64
Period size: 3 Copynumber: 41.0 Consensus size: 3
34807314 TCATTCCTAA
* * * *
34807324 TAT TAT TAA TAC TAT TAT T-T CTAT TAT TAT TAT TAT TAT TGT TTT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
34807369 TAT TAA TAT T-C TAGT TAT TAAA TAT TAT TAT T-T TAAT GCAT TAT TAT
1 TAT TAT TAT TAT TA-T TAT T-AT TAT TAT TAT TAT T-AT -TAT TAT TAT
*
34807416 T-T CTAGT TAT TAT TAT T-T CTAA TAT TAT TAT TAT
1 TAT -TA-T TAT TAT TAT TAT -TAT TAT TAT TAT TAT
34807450 ATATAATATT
Statistics
Matches: 94, Mismatches: 16, Indels: 26
0.69 0.12 0.19
Matches are distributed among these distances:
2 6 0.06
3 77 0.82
4 10 0.11
5 1 0.01
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:34807411 original size:16 final size:15
Alignment explanation
Indices: 34807389--34807447 Score: 75
Period size: 16 Copynumber: 3.8 Consensus size: 15
34807379 CTAGTTATTA
34807389 AATATTATTATTT-T
1 AATATTATTATTTCT
34807403 AATGCATTATTATTTCT
1 AAT--ATTATTATTTCT
*
34807420 AGTTATTATTATTTCT
1 A-ATATTATTATTTCT
34807436 AATATTATTATT
1 AATATTATTATT
34807448 ATATATAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
14 3 0.08
15 10 0.26
16 23 0.59
17 2 0.05
18 1 0.03
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.59
Consensus pattern (15 bp):
AATATTATTATTTCT
Found at i:34807456 original size:18 final size:18
Alignment explanation
Indices: 34807422--34807460 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
34807412 TTATTTCTAG
* *
34807422 TTATTATTATTTCTAATA
1 TTATTATTATATATAATA
34807440 TTATTATTATATATAATA
1 TTATTATTATATATAATA
34807458 TTA
1 TTA
34807461 GTGTGTGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (18 bp):
TTATTATTATATATAATA
Found at i:34807878 original size:18 final size:19
Alignment explanation
Indices: 34807857--34807903 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 19
34807847 GTTTTTTCTT
34807857 TATATATTATATTAT-TTG
1 TATATATTATATTATATTG
*
34807875 TATAT-TT-TATTGTATTG
1 TATATATTATATTATATTG
34807892 TATATA-TATATT
1 TATATATTATATT
34807904 TTAAATAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 5 0.20
17 11 0.44
18 9 0.36
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (19 bp):
TATATATTATATTATATTG
Found at i:34807981 original size:22 final size:21
Alignment explanation
Indices: 34807946--34808000 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
34807936 TATCATACTA
34807946 TTCATATATTTTATT-GTTAT
1 TTCATATATTTTATTAGTTAT
34807966 TTCATATATATATTATTAGTTAT
1 TTCATATAT-T-TTATTAGTTAT
*
34807989 AT-ATAT-TTTTAT
1 TTCATATATTTTAT
34808001 ACTATTTCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
19 4 0.13
20 10 0.32
21 2 0.06
22 9 0.29
23 6 0.19
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.62
Consensus pattern (21 bp):
TTCATATATTTTATTAGTTAT
Found at i:34808082 original size:25 final size:25
Alignment explanation
Indices: 34808044--34808091 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
34808034 ATTATTGTTG
* *
34808044 TTAATATTAGTATATGTATATATCT
1 TTAATATTAGTATAGGTACATATCT
34808069 TTAATATATA-TATAGGTACATAT
1 TTAATAT-TAGTATAGGTACATAT
34808092 TTATGTGACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (25 bp):
TTAATATTAGTATAGGTACATATCT
Found at i:34808848 original size:16 final size:16
Alignment explanation
Indices: 34808827--34808864 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
34808817 GTCCTTCTCA
34808827 AAAATCAAAAGAATTG
1 AAAATCAAAAGAATTG
34808843 AAAATCAAAAGAATTG
1 AAAATCAAAAGAATTG
34808859 AAAATC
1 AAAATC
34808865 CTTGTGTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.63, C:0.08, G:0.11, T:0.18
Consensus pattern (16 bp):
AAAATCAAAAGAATTG
Found at i:34816259 original size:16 final size:16
Alignment explanation
Indices: 34816238--34816275 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
34816228 GTCCTTCTCA
34816238 AAAATCAAAAGAATTG
1 AAAATCAAAAGAATTG
34816254 AAAATCAAAAGAATTG
1 AAAATCAAAAGAATTG
34816270 AAAATC
1 AAAATC
34816276 CTCATGTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.63, C:0.08, G:0.11, T:0.18
Consensus pattern (16 bp):
AAAATCAAAAGAATTG
Found at i:34816834 original size:59 final size:62
Alignment explanation
Indices: 34816760--34816884 Score: 175
Period size: 64 Copynumber: 2.0 Consensus size: 62
34816750 TTAATATGTA
** *
34816760 TTAGATACTGCAATTATTT-A-TGTTTT-TTATCAAATTAATATTTAAATACTATTTTATAT
1 TTAGATACAACAATTATTTAATTGTTTTCTTACCAAATTAATATTTAAATACTATTTTATAT
*
34816819 TTAGATACAACAATTATTTAGCATTGTTTTCTTACCAAATTAATATTTAAATACTATTTTGTAT
1 TTAGATACAACAATTATTTA--ATTGTTTTCTTACCAAATTAATATTTAAATACTATTTTATAT
34816883 TT
1 TT
34816885 GTTTTTCAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
59 17 0.30
62 1 0.02
63 6 0.11
64 33 0.58
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.50
Consensus pattern (62 bp):
TTAGATACAACAATTATTTAATTGTTTTCTTACCAAATTAATATTTAAATACTATTTTATAT
Found at i:34818542 original size:22 final size:24
Alignment explanation
Indices: 34818508--34818551 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
34818498 TAATATTCAA
*
34818508 TATATATTGAAATTTTAAAAAATG
1 TATATATTGAAATTTAAAAAAATG
34818532 TATATA-T-AAATTTAAAAAAA
1 TATATATTGAAATTTAAAAAAA
34818552 AAACTAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 1 0.05
24 6 0.32
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.39
Consensus pattern (24 bp):
TATATATTGAAATTTAAAAAAATG
Found at i:34818563 original size:21 final size:22
Alignment explanation
Indices: 34818539--34818583 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
34818529 ATGTATATAT
34818539 AAAT-TTAAAAAAAAAACTAAA
1 AAATATTAAAAAAAAAACTAAA
* *
34818560 AAATATTGAAAAAAAATCTAAA
1 AAATATTAAAAAAAAAACTAAA
34818582 AA
1 AA
34818584 CGCTATATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.20
Consensus pattern (22 bp):
AAATATTAAAAAAAAAACTAAA
Found at i:34823524 original size:37 final size:37
Alignment explanation
Indices: 34823474--34823547 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
34823464 GTCCTAAAAC
34823474 TTGAGCAAATTTTATAATGTAATATTTATTTTTTTAA
1 TTGAGCAAATTTTATAATGTAATATTTATTTTTTTAA
34823511 TTGAGCAAATTTTATAATGTAATATTTATTTTTTTAA
1 TTGAGCAAATTTTATAATGTAATATTTATTTTTTTAA
34823548 CATGTTAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.35, C:0.03, G:0.08, T:0.54
Consensus pattern (37 bp):
TTGAGCAAATTTTATAATGTAATATTTATTTTTTTAA
Found at i:34827937 original size:15 final size:15
Alignment explanation
Indices: 34827902--34827943 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
34827892 TTAAGAATTT
*
34827902 TATTAAATTAT-ATA
1 TATTTAATTATAATA
34827916 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
34827930 TATTTAATAATAAT
1 TATTTAATTATAAT
34827944 TATGTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:34828178 original size:45 final size:44
Alignment explanation
Indices: 34828096--34828186 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
34828086 ACCTCTATTC
*
34828096 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACACCTCTATTCCATTA
*** * *
34828140 CATTCAACCAAACAGTTGATTTGCTATTACATCTCTATTCCATTA
1 CATTCAACCAAACACAAGA-TTACTATTACACCTCTATTCCATTA
34828185 CA
1 CA
34828187 CCTCTATTCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 16 0.40
45 24 0.60
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.33
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACACCTCTATTCCATTA
Found at i:34828186 original size:16 final size:16
Alignment explanation
Indices: 34828165--34828218 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
34828155 TTGATTTGCT
*
34828165 ATTACATCTCTATTCC
1 ATTACACCTCTATTCC
34828181 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
34828197 ATTACACCTCTAATCC
1 ATTACACCTCTATTCC
*
34828213 AATACA
1 ATTACA
34828219 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.31, C:0.33, G:0.00, T:0.35
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:34829625 original size:27 final size:27
Alignment explanation
Indices: 34829568--34829627 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
34829558 AGGCGCGACT
* * *
34829568 AGGCGCGACTAGTTGAACCTATTTGAC
1 AGGCGCAACTAGTTGAACCTATCTCAC
** *
34829595 AGGCGCAACTAGTTGTGCCTATCTCAG
1 AGGCGCAACTAGTTGAACCTATCTCAC
34829622 AGGCGC
1 AGGCGC
34829628 GAATGGTGGG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (27 bp):
AGGCGCAACTAGTTGAACCTATCTCAC
Found at i:34832938 original size:30 final size:30
Alignment explanation
Indices: 34832888--34832945 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
34832878 TACTAACAAA
*
34832888 ATAATTATAAAATATATTTTTAAGAAAATAC
1 ATAACTATAAAATATATTTTTAA-AAAATAC
34832919 ATAACTATAAAAT-TATTTTTAAAAAAT
1 ATAACTATAAAATATATTTTTAAAAAAT
34832946 TCATGTACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 5 0.19
30 9 0.35
31 12 0.46
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (30 bp):
ATAACTATAAAATATATTTTTAAAAAATAC
Found at i:34833015 original size:22 final size:21
Alignment explanation
Indices: 34832987--34833029 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
34832977 TATTTGTGGG
**
34832987 TGTTAAATTTTTTTAATTAAAA
1 TGTTAAATAATTTTAA-TAAAA
34833009 TGTTAAATAATTTTAATAAAA
1 TGTTAAATAATTTTAATAAAA
34833030 GTATTTATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (21 bp):
TGTTAAATAATTTTAATAAAA
Found at i:34833668 original size:19 final size:19
Alignment explanation
Indices: 34833646--34833729 Score: 59
Period size: 19 Copynumber: 4.3 Consensus size: 19
34833636 CAAAAATTTA
34833646 TAACATAATCCTAAATTAT
1 TAACATAATCCTAAATTAT
*
34833665 TAACAAATTAATCCTAAAATAAT
1 TAAC--A-TAATCCT-AAATTAT
*
34833688 T-ACA-AA-CACAAAAAATTA-
1 TAACATAATC-C--TAAATTAT
34833706 TAACATAATCCTAAATTAT
1 TAACATAATCCTAAATTAT
34833725 TAACA
1 TAACA
34833730 AATTAATTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 22
0.66 0.05 0.29
Matches are distributed among these distances:
17 1 0.02
18 10 0.20
19 17 0.34
20 4 0.08
21 2 0.04
22 9 0.18
23 7 0.14
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (19 bp):
TAACATAATCCTAAATTAT
Found at i:34833673 original size:60 final size:60
Alignment explanation
Indices: 34833571--34833749 Score: 295
Period size: 60 Copynumber: 3.0 Consensus size: 60
34833561 ATACTAAACT
* * * *
34833571 AAACACAATAATTTATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTATTAACAAATTAATTTTAAAATAATTAC
**
34833631 AAACACAAAAATTTATAACATAATCCTAAATTATTAACAAATTAATCCTAAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTATTAACAAATTAATTTTAAAATAATTAC
*
34833691 AAACACAAAAAATTATAACATAATCCTAAATTATTAACAAATTAATTTTAAAATAATTA
1 AAACACAAAAATTTATAACATAATCCTAAATTATTAACAAATTAATTTTAAAATAATTA
34833750 TAAAAAAGAA
Statistics
Matches: 110, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 110 1.00
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAATTATTAACAAATTAATTTTAAAATAATTAC
Found at i:34833692 original size:22 final size:22
Alignment explanation
Indices: 34833651--34833693 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
34833641 ATTTATAACA
*
34833651 TAATCCTAAATTATTAACAAAT
1 TAATCCTAAATAATTAACAAAT
34833673 TAATCCTAAAATAATT-ACAAA
1 TAATCCT-AAATAATTAACAAA
34833694 CACAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (22 bp):
TAATCCTAAATAATTAACAAAT
Found at i:34833825 original size:14 final size:15
Alignment explanation
Indices: 34833801--34833843 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
34833791 ATAGACACTA
34833801 AACATAAATAATTTAT
1 AACA-AAATAATTTAT
*
34833817 AA-AAAATAATTAAT
1 AACAAAATAATTTAT
*
34833831 AACAAAAAAATTT
1 AACAAAATAATTT
34833844 CACAACATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 12 0.52
15 9 0.39
16 2 0.09
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (15 bp):
AACAAAATAATTTAT
Found at i:34833929 original size:14 final size:13
Alignment explanation
Indices: 34833907--34833971 Score: 53
Period size: 13 Copynumber: 4.8 Consensus size: 13
34833897 AATAATTACC
34833907 TTTTT-TTCTTTCT
1 TTTTTCTTC-TTCT
34833920 TTTTTCTTCTTCT
1 TTTTTCTTCTTCT
*
34833933 TCTTTTTTTCTTCT
1 T-TTTTCTTCTTCT
*
34833947 CTTTTCTCTCTT-T
1 TTTTTCT-TCTTCT
*
34833960 TCTTTCTCTCTT
1 TTTTTCT-TCTT
34833972 TCGGTGGGTG
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
13 26 0.59
14 18 0.41
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTTTCTTCTTCT
Found at i:34833937 original size:20 final size:19
Alignment explanation
Indices: 34833910--34833973 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
34833900 AATTACCTTT
34833910 TTTTCTTTCTTTT-TTCTTC
1 TTTTCTTTCTTTTCTTC-TC
34833929 TTCTTCTTT-TTTTCTTCTC
1 TT-TTCTTTCTTTTCTTCTC
*
34833948 TTTTCTCTCTTTTCTTTCTC
1 TTTTCTTTCTTTTC-TTCTC
34833968 TCTTTC
1 T-TTTC
34833974 GGTGGGTGAG
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
18 5 0.13
19 15 0.38
20 15 0.38
21 4 0.10
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTCTTTCTTTTCTTCTC
Found at i:34833946 original size:27 final size:28
Alignment explanation
Indices: 34833906--34833973 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 28
34833896 TAATAATTAC
*
34833906 CTTTTTTTCTTTCTTTTTTCT-TCTTCTT
1 CTTTTTTTCTTTCTCTTTTCTCTCTT-TT
34833934 CTTTTTTTC-TTCTCTTTTCTCTCTTTT
1 CTTTTTTTCTTTCTCTTTTCTCTCTTTT
* *
34833961 CTTTCTCTCTTTC
1 CTTTTTTTCTTTC
34833974 GGTGGGTGAG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 19 0.54
28 16 0.46
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (28 bp):
CTTTTTTTCTTTCTCTTTTCTCTCTTTT
Found at i:34833951 original size:28 final size:27
Alignment explanation
Indices: 34833906--34833973 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 27
34833896 TAATAATTAC
34833906 CTTTTTTTCTTTCTTTTT-TCTTCTTCTT
1 CTTTTTTTCTTTCTTTTTCTC-TCTT-TT
34833934 CTTTTTTTC-TTCTCTTTTCTCTCTTTT
1 CTTTTTTTCTTTCT-TTTTCTCTCTTTT
* *
34833961 CTTTCTCTCTTTC
1 CTTTTTTTCTTTC
34833974 GGTGGGTGAG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 13 0.37
28 20 0.57
29 2 0.06
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (27 bp):
CTTTTTTTCTTTCTTTTTCTCTCTTTT
Found at i:34833958 original size:22 final size:21
Alignment explanation
Indices: 34833906--34833972 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 21
34833896 TAATAATTAC
* *
34833906 CTTTTTTTC-TTTCTTT-TTT
1 CTTTTCTTCTTTTCTTTCTCT
34833925 CTTCTTCTTCTTTT-TTTCTTCT
1 CTT-TTCTTCTTTTCTTTC-TCT
34833947 CTTTTCTCTCTTTTCTTTCTCT
1 CTTTTCT-TCTTTTCTTTCTCT
34833969 CTTT
1 CTTT
34833973 CGGTGGGTGA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
19 3 0.08
20 8 0.20
21 7 0.17
22 18 0.45
23 4 0.10
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (21 bp):
CTTTTCTTCTTTTCTTTCTCT
Found at i:34833967 original size:11 final size:10
Alignment explanation
Indices: 34833910--34833973 Score: 57
Period size: 9 Copynumber: 6.5 Consensus size: 10
34833900 AATTACCTTT
34833910 TTTTCTT-TC
1 TTTTCTTCTC
34833919 TTTT-TTCTTC
1 TTTTCTTC-TC
34833929 TTCTTCTT-T-
1 TT-TTCTTCTC
34833938 TTTTCTTCTC
1 TTTTCTTCTC
34833948 TTTTC-TCTC
1 TTTTCTTCTC
34833957 TTTTCTTTCTC
1 TTTTC-TTCTC
34833968 TCTTTC
1 T-TTTC
34833974 GGTGGGTGAG
Statistics
Matches: 46, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
8 7 0.15
9 16 0.35
10 10 0.22
11 7 0.15
12 6 0.13
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTTCTTCTC
Found at i:34834261 original size:25 final size:25
Alignment explanation
Indices: 34834240--34834295 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 25
34834230 TAATAAAAAT
34834240 AAAAAATAATATTTTATTTAAACAAACA
1 AAAAAAT-ATA-TTT-TTTAAACAAACA
*
34834268 AAAAAATATATTTTTTAATATAAACA
1 AAAAAATATATTTTTTAA-ACAAACA
34834294 AA
1 AA
34834296 GGAGTCGCGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 5 0.19
26 11 0.42
27 3 0.12
28 7 0.27
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (25 bp):
AAAAAATATATTTTTTAAACAAACA
Found at i:34834294 original size:30 final size:28
Alignment explanation
Indices: 34834240--34834295 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
34834230 TAATAAAAAT
*
34834240 AAAAAATAATATTTTATTTAAACAAACA
1 AAAAAATAATATTTTATATAAACAAACA
*
34834268 AAAAAATATATTTTTTAATATAAACAAA
1 AAAAAATA-ATATTTT-ATATAAACAAA
34834296 GGAGTCGCGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 8 0.33
29 6 0.25
30 10 0.42
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (28 bp):
AAAAAATAATATTTTATATAAACAAACA
Found at i:34839749 original size:24 final size:24
Alignment explanation
Indices: 34839722--34839768 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
34839712 TTAGACTAGA
*
34839722 TCTAATCCTAAGTTCTAAATTTAG
1 TCTAATCCTAAGCTCTAAATTTAG
*
34839746 TCTAATTCTAAGCTCTAAATTTA
1 TCTAATCCTAAGCTCTAAATTTA
34839769 AGTTAAGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.17, G:0.06, T:0.43
Consensus pattern (24 bp):
TCTAATCCTAAGCTCTAAATTTAG
Found at i:34839870 original size:12 final size:12
Alignment explanation
Indices: 34839850--34839914 Score: 58
Period size: 12 Copynumber: 5.3 Consensus size: 12
34839840 CTAAGTTTAA
34839850 TCTAATTCTAAG
1 TCTAATTCTAAG
* *
34839862 TCTAGTTCTAAA
1 TCTAATTCTAAG
* *
34839874 ACTAGTTCTAAAG
1 TCTAATTCT-AAG
*
34839887 GCTAATTCTAAG
1 TCTAATTCTAAG
* *
34839899 ACCAATTCTAAG
1 TCTAATTCTAAG
34839911 TCTA
1 TCTA
34839915 TATGATAATT
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
12 33 0.79
13 9 0.21
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.35
Consensus pattern (12 bp):
TCTAATTCTAAG
Found at i:34839907 original size:25 final size:25
Alignment explanation
Indices: 34839853--34839909 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
34839843 AGTTTAATCT
* * *
34839853 AATTCT-AAGTCTAGTTCTAAAACT
1 AATTCTAAAGGCTAATTCTAAAACC
* *
34839877 AGTTCTAAAGGCTAATTCTAAGACC
1 AATTCTAAAGGCTAATTCTAAAACC
34839902 AATTCTAA
1 AATTCTAA
34839910 GTCTATATGA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.33
Consensus pattern (25 bp):
AATTCTAAAGGCTAATTCTAAAACC
Found at i:34844990 original size:20 final size:20
Alignment explanation
Indices: 34844965--34845029 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
34844955 CACATACATG
*
34844965 CCCCTGTTTGGACTTTGGTA
1 CCCCTGTTTGAACTTTGGTA
** *
34844985 CCCCTGAATGAACATATGTGT-
1 CCCCTGTTTGAAC-TTTG-GTA
*
34845006 -CCCTGTTTGTACTTTGGTA
1 CCCCTGTTTGAACTTTGGTA
34845025 CCCCT
1 CCCCT
34845030 AAATGCATAT
Statistics
Matches: 33, Mismatches: 8, Indels: 8
0.67 0.16 0.16
Matches are distributed among these distances:
18 2 0.06
19 3 0.09
20 23 0.70
21 3 0.09
22 2 0.06
ACGTcount: A:0.15, C:0.28, G:0.20, T:0.37
Consensus pattern (20 bp):
CCCCTGTTTGAACTTTGGTA
Found at i:34849228 original size:14 final size:14
Alignment explanation
Indices: 34849209--34849250 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
34849199 CACAACCATT
34849209 TCCACACTCACATA
1 TCCACACTCACATA
* *
34849223 TCCACA-AC-CATT
1 TCCACACTCACATA
34849235 TCCACACTCACATA
1 TCCACACTCACATA
34849249 TC
1 TC
34849251 ACAACAAAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
12 9 0.41
13 2 0.09
14 11 0.50
ACGTcount: A:0.33, C:0.43, G:0.00, T:0.24
Consensus pattern (14 bp):
TCCACACTCACATA
Found at i:34849235 original size:26 final size:25
Alignment explanation
Indices: 34849199--34849255 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 25
34849189 TTAACCTATG
34849199 CACAACCATTTCCACACTCACATAT
1 CACAACCATTTCCACACTCACATAT
34849224 CCACAACCATTTCCACACTCACATAT
1 -CACAACCATTTCCACACTCACATAT
34849250 CACAAC
1 CACAAC
34849256 AAAACCTTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 6 0.19
26 25 0.81
ACGTcount: A:0.37, C:0.42, G:0.00, T:0.21
Consensus pattern (25 bp):
CACAACCATTTCCACACTCACATAT
Found at i:34849498 original size:24 final size:25
Alignment explanation
Indices: 34849466--34849531 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 25
34849456 GTACTTTTTT
34849466 CGTCAATTCATCCTTTGCA-TATAC
1 CGTCAATTCATCCTTTGCATTATAC
* * *
34849490 CGTCAATTCCTACTTTGCATTTTAC
1 CGTCAATTCATCCTTTGCATTATAC
34849515 CGTCAATTCATCCTTTG
1 CGTCAATTCATCCTTTG
34849532 ACACAAAATG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
24 17 0.47
25 19 0.53
ACGTcount: A:0.21, C:0.29, G:0.09, T:0.41
Consensus pattern (25 bp):
CGTCAATTCATCCTTTGCATTATAC
Found at i:34854148 original size:21 final size:20
Alignment explanation
Indices: 34854124--34854163 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
34854114 CATGTATTTT
34854124 AATGATTGATGATAGATTATG
1 AATGATTGATGATAG-TTATG
*
34854145 AATGTTTGATGATAGTTAT
1 AATGATTGATGATAGTTAT
34854164 ACAAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (20 bp):
AATGATTGATGATAGTTATG
Found at i:34854171 original size:20 final size:21
Alignment explanation
Indices: 34854129--34854171 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
34854119 ATTTTAATGA
*
34854129 TTGATGATAGATTATGAATGT
1 TTGATGATAGATTATGAAAGT
34854150 TTGATGATAG-TTAT-ACAAGT
1 TTGATGATAGATTATGA-AAGT
34854170 TT
1 TT
34854172 TGTTAAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 9 0.45
21 10 0.50
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (21 bp):
TTGATGATAGATTATGAAAGT
Found at i:34855507 original size:6 final size:6
Alignment explanation
Indices: 34855496--34855527 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
34855486 CACCATAAGG
*
34855496 GTAACA GTAACA GTAACA GTAACA ATAACA GT
1 GTAACA GTAACA GTAACA GTAACA GTAACA GT
34855528 CAAGTACTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:34856317 original size:38 final size:38
Alignment explanation
Indices: 34856266--34856341 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
34856256 TCCTAGGATA
34856266 CCATAGACACCAAAATTACAAGAAAAATGATTAAATTG
1 CCATAGACACCAAAATTACAAGAAAAATGATTAAATTG
34856304 CCATAGACACCAAAATTACAAGAAAAATGATTAAATTG
1 CCATAGACACCAAAATTACAAGAAAAATGATTAAATTG
34856342 ACTTACCAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.53, C:0.16, G:0.11, T:0.21
Consensus pattern (38 bp):
CCATAGACACCAAAATTACAAGAAAAATGATTAAATTG
Found at i:34867736 original size:164 final size:159
Alignment explanation
Indices: 34867453--34867848 Score: 437
Period size: 164 Copynumber: 2.5 Consensus size: 159
34867443 GTTAACACTA
* * * *
34867453 TATTAAAAAAAAAGACCACAGAGAACCTAGTTAACACTCCAAATTTAATCTTCTCTCTTCAATTT
1 TATTAAAAAAAAA-ACCGCAAAGAACCTAGCTAACACTCCAAATTTAATCTTCTCTCTTCAATTC
* * * * *
34867518 CTACTGAGTCCTTATCAAAAGTCTCTCGACTTCTATGTAATCGATAACAAGATCAACAAAACAAA
65 CAACTGAGTCCTTATCAAAAATCTCTCAACATCTATATAATCGATAACAAGAT---C-AAACAAA
* * * * ** *
34867583 CCATTGTCGATAAGCACCTCCAGACAAAGGACCT
126 CCATTATCAATAAACACCTCAAGACAAAACACAT
* *
34867617 TATTAAAAAAAAACACCGTAAAGAACTTAGCTAACACTCCAAATTTAATCTTCTCTCTTCAATTC
1 TATTAAAAAAAAA-ACCGCAAAGAACCTAGCTAACACTCCAAATTTAATCTTCTCTCTTCAATTC
* * *
34867682 CAACT-AGGTCCTTATTAAAAATCTCTCAACATCTATATAATCGGTAGA-AAGATCAAATAAACC
65 CAACTGA-GTCCTTATCAAAAATCTCTCAACATCTATATAATCGATA-ACAAGATCAAACAAACC
34867745 ATTATCAATAAACACCTCAAGACAAAACACAT
128 ATTATCAATAAACACCTCAAGACAAAACACAT
** * *
34867777 TATT---AAAAAAAGGGCAAAGAACCTAACTAACACTCCAAATTTAATCTTCTCTTTTCAAATTC
1 TATTAAAAAAAAAACCGCAAAGAACCTAGCTAACACTCCAAATTTAATCTTCTCTCTTC-AATTC
34867839 CAA-TGA-TCCT
65 CAACTGAGTCCT
34867849 AAAACCCAAT
Statistics
Matches: 200, Mismatches: 28, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
155 4 0.02
156 41 0.20
157 15 0.08
160 37 0.19
161 1 0.00
163 1 0.00
164 100 0.50
165 1 0.00
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.27
Consensus pattern (159 bp):
TATTAAAAAAAAAACCGCAAAGAACCTAGCTAACACTCCAAATTTAATCTTCTCTCTTCAATTCC
AACTGAGTCCTTATCAAAAATCTCTCAACATCTATATAATCGATAACAAGATCAAACAAACCATT
ATCAATAAACACCTCAAGACAAAACACAT
Found at i:34868390 original size:23 final size:23
Alignment explanation
Indices: 34868360--34868405 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
34868350 TGTCCCAAGA
34868360 TCATCAGCAAGTCGAAAAATTAT
1 TCATCAGCAAGTCGAAAAATTAT
34868383 TCATCAGCAAGTCGAAAAATTAT
1 TCATCAGCAAGTCGAAAAATTAT
34868406 GGCCGAGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.26
Consensus pattern (23 bp):
TCATCAGCAAGTCGAAAAATTAT
Found at i:34874043 original size:35 final size:35
Alignment explanation
Indices: 34873997--34874067 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
34873987 CACATCGAAG
*
34873997 CGTTCAAACCATTTTATGTTGTTTATCTAGAAAAA
1 CGTTCAAACCATTTTATGTTGTTGATCTAGAAAAA
*
34874032 CGTTCAAACCATTTTATGTTGTTGATCTTGAAAAA
1 CGTTCAAACCATTTTATGTTGTTGATCTAGAAAAA
34874067 C
1 C
34874068 TTACTTAGTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.39
Consensus pattern (35 bp):
CGTTCAAACCATTTTATGTTGTTGATCTAGAAAAA
Found at i:34880761 original size:27 final size:26
Alignment explanation
Indices: 34880726--34880837 Score: 152
Period size: 27 Copynumber: 4.2 Consensus size: 26
34880716 AGAATGGCTG
* *
34880726 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
34880752 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
34880780 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
34880807 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
34880834 CCAG
1 CCAG
34880838 GACGCTTCCT
Statistics
Matches: 78, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
26 6 0.08
27 55 0.71
28 17 0.22
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:34880790 original size:54 final size:54
Alignment explanation
Indices: 34880726--34880837 Score: 172
Period size: 54 Copynumber: 2.1 Consensus size: 54
34880716 AGAATGGCTG
*
34880726 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * *
34880780 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
34880834 CCAG
1 CCAG
34880838 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
54 35 0.66
55 18 0.34
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:34896771 original size:50 final size:50
Alignment explanation
Indices: 34896707--34897104 Score: 341
Period size: 50 Copynumber: 7.9 Consensus size: 50
34896697 TAAGATAGTT
* * * *
34896707 TTAGGTCACGTGTGTAGTACTCAGTGTAGGCTACTACGTGTACTAGATTG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * * * * ** * *
34896757 TTTGGTCACATGTGTAGTACAAAGTG-AAGTTACTATGCATACCCGATAG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * * * * *
34896806 CTTCGATCACATGTGTAGTACAAAGTGCATGCTACTACGTGTATCAGATGG
1 -TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
** * * * * *
34896857 TTAGGTCATGTGTGTAGTACTAAGTGGAGGGTACTACATGTACCAAATTA
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * * * * ** *
34896907 TTAGATCGCATGTGTATTACTAAGTGTAGGCTACTATGCATACCCA-ATAG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATTG
* * * * * * *
34896957 CTTTGATGACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATGG
1 -TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * *
34897008 TCAGGTCACCTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* *
34897058 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
34897105 GAGCTTCGGT
Statistics
Matches: 269, Mismatches: 74, Indels: 10
0.76 0.21 0.03
Matches are distributed among these distances:
49 15 0.06
50 200 0.74
51 54 0.20
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (50 bp):
TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
Found at i:34896992 original size:151 final size:150
Alignment explanation
Indices: 34896673--34897101 Score: 552
Period size: 151 Copynumber: 2.8 Consensus size: 150
34896663 GTGAGAACAC
* * * * * *
34896673 ACTATGTGCAGGCTACTATGTGTTTAAGATAGTTTTAGGTCACGTGTGTAGTACTCAGTGTAGGC
1 ACTAAGTGCAGGCTACTACGTGTATCAGAT-G-GTTAGGTCACGTGTGTAGTACTAAGTGTAGGC
* * * * * *
34896738 TACTACGTGTACTAGATTGTTTGGTCACATGTGTAGTACAAAGTGAAGTTACTATGCATACCCGA
64 TACTACGTGTACCAGATTGTTAGGTCACATGTGTAGTACTAAGTGAGGCTACTATGCATACCCAA
34896803 TAGCTTCGATCACATGTGTAGT
129 TAGCTTCGATCACATGTGTAGT
* * * * *
34896825 ACAAAGTGCATGCTACTACGTGTATCAGATGGTTAGGTCATGTGTGTAGTACTAAGTGGAGGGTA
1 ACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGTAGGCTA
* * * * * *
34896890 CTACATGTACCAAATTATTAGATCGCATGTGTATTACTAAGTGTAGGCTACTATGCATACCCAAT
66 CTACGTGTACCAGATTGTTAGGTCACATGTGTAGTACTAAGTG-AGGCTACTATGCATACCCAAT
* * *
34896955 AGCTTTGATGACGTGTGTAGT
130 AGCTTCGATCACATGTGTAGT
* * *
34896976 ACTAAGTGCAGGCTACTACGTGTATCGGATGGTCAGGTCACCTGTGTAGTACTAAGTGTAGGCTA
1 ACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGTAGGCTA
*
34897041 CTACGTGTACCAGATTGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
66 CTACGTGTACCAGATTGTTAGGTCACATGTGTAGTACTAAGTG-AGGCTACTATGCATACC
34897102 AGAGAGCTTC
Statistics
Matches: 234, Mismatches: 42, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
150 63 0.27
151 147 0.63
152 24 0.10
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (150 bp):
ACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGTAGGCTA
CTACGTGTACCAGATTGTTAGGTCACATGTGTAGTACTAAGTGAGGCTACTATGCATACCCAATA
GCTTCGATCACATGTGTAGT
Found at i:34904477 original size:42 final size:42
Alignment explanation
Indices: 34904428--34904542 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 42
34904418 TATTGAGATA
* * *
34904428 ACATGTAAGACGATATCTAGGATATGACATCGATATGAGACGT
1 ACATGTAAGACCATATCTGGGATATGACATCGATACGAGA-GT
* * * * *
34904471 -CGTGTAAGACCATAGCTGGGCTATTGGCATCGATACGAGATT
1 ACATGTAAGACCATATCTGGGATA-TGACATCGATACGAGAGT
34904513 ACATGTAAGACCATATCTGGGATATGACAT
1 ACATGTAAGACCATATCTGGGATATGACAT
34904543 TGGTACGTTA
Statistics
Matches: 58, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
42 24 0.41
43 34 0.59
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (42 bp):
ACATGTAAGACCATATCTGGGATATGACATCGATACGAGAGT
Found at i:34906051 original size:38 final size:38
Alignment explanation
Indices: 34906007--34906086 Score: 160
Period size: 38 Copynumber: 2.1 Consensus size: 38
34905997 TGTTATTGTT
34906007 GTTTTACATGAAATCTATCTGGCTATGATCATATTGAA
1 GTTTTACATGAAATCTATCTGGCTATGATCATATTGAA
34906045 GTTTTACATGAAATCTATCTGGCTATGATCATATTGAA
1 GTTTTACATGAAATCTATCTGGCTATGATCATATTGAA
34906083 GTTT
1 GTTT
34906087 ATGTTAATGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.41
Consensus pattern (38 bp):
GTTTTACATGAAATCTATCTGGCTATGATCATATTGAA
Found at i:34913489 original size:28 final size:27
Alignment explanation
Indices: 34913388--34913489 Score: 80
Period size: 28 Copynumber: 3.5 Consensus size: 27
34913378 TCAGTGTTAA
* *
34913388 CTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCC-TAGCCCATATCAGTATCAAT
*
34913416 CTGGGCCATAGCCCCT-TACAGTATCAGAGTAT
1 CTGGGCC-TAGCCCATAT-CAGTATC--A--AT
*
34913448 ATTGGGCCTAGCCCATATCAGTATCAAT
1 -CTGGGCCTAGCCCATATCAGTATCAAT
34913476 CTGGGCCGTAGCCC
1 CTGGGCC-TAGCCC
34913490 TATTACAAGT
Statistics
Matches: 59, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
27 7 0.12
28 27 0.46
30 2 0.03
32 16 0.27
33 7 0.12
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (27 bp):
CTGGGCCTAGCCCATATCAGTATCAAT
Found at i:34913509 original size:60 final size:59
Alignment explanation
Indices: 34913389--34913516 Score: 161
Period size: 60 Copynumber: 2.1 Consensus size: 59
34913379 CAGTGTTAAC
* *
34913389 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTATCAGAGTATAT
1 TGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAG-ATCAGAGTATAT
* *
34913450 TGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACA-AGTC-GAGATATAT
1 TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTACAGA-TCAGAG-TATAT
34913510 TGGGCCT
1 TGGGCCT
34913517 TGGCTATATT
Statistics
Matches: 60, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
59 4 0.07
60 45 0.75
61 11 0.18
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (59 bp):
TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGATCAGAGTATAT
Found at i:34915988 original size:19 final size:18
Alignment explanation
Indices: 34915952--34915995 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
34915942 ATATATGCAG
34915952 TAAT-ATTTTTCAAATAA
1 TAATAATTTTTCAAATAA
*
34915969 TAATAATTTTATCTAATAA
1 TAATAATTTT-TCAAATAA
*
34915988 TACTAATT
1 TAATAATT
34915996 AAAATTTCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (18 bp):
TAATAATTTTTCAAATAA
Found at i:34918636 original size:20 final size:21
Alignment explanation
Indices: 34918606--34918645 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
34918596 TCCTTTTTGG
34918606 AAGGTGGATATCACAATACCC
1 AAGGTGGATATCACAATACCC
*
34918627 AAGG-GGATATCGCAATACC
1 AAGGTGGATATCACAATACC
34918646 AATGAAGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (21 bp):
AAGGTGGATATCACAATACCC
Found at i:34923372 original size:42 final size:42
Alignment explanation
Indices: 34923313--34923428 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 42
34923303 CCTATGGTGT
34923313 CCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCAATACTGC
1 CCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCAATACTGC
* * * * * ** **
34923355 TCGAGGCTCCTGGACATCCGAGGCACTAAGGTGCCGGTGGTGC
1 CCGAGGCTCCCGCACATCC-AAGCACCAAGGTGCCAATACTGC
*
34923398 CCGAAGCTCCCGCACATCCAAGCACCAAGGT
1 CCGAGGCTCCCGCACATCCAAGCACCAAGGT
34923429 ACTGATGGTA
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
42 26 0.45
43 32 0.55
ACGTcount: A:0.23, C:0.36, G:0.27, T:0.14
Consensus pattern (42 bp):
CCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCAATACTGC
Found at i:34923461 original size:42 final size:43
Alignment explanation
Indices: 34923415--34923523 Score: 114
Period size: 43 Copynumber: 2.6 Consensus size: 43
34923405 TCCCGCACAT
*
34923415 CCAAGCACCAAGG-TACTGATGGTACCCGAGGCTCTCACACGA
1 CCAAGCACCAAGGTTACCGATGGTACCCGAGGCTCTCACACGA
** * * * *
34923457 CCAAGGGCCTAGGTTACCGATGGTGCCCGAGGCTCTCGCGCGA
1 CCAAGCACCAAGGTTACCGATGGTACCCGAGGCTCTCACACGA
* *
34923500 CCAAAG-GCCTAGGTTACCGATGGT
1 CC-AAGCACCAAGGTTACCGATGGT
34923524 GTCCGTGGCT
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
42 10 0.17
43 45 0.78
44 3 0.05
ACGTcount: A:0.23, C:0.31, G:0.29, T:0.17
Consensus pattern (43 bp):
CCAAGCACCAAGGTTACCGATGGTACCCGAGGCTCTCACACGA
Found at i:34923486 original size:43 final size:43
Alignment explanation
Indices: 34923432--34923534 Score: 152
Period size: 43 Copynumber: 2.4 Consensus size: 43
34923422 CCAAGGTACT
* *
34923432 GATGGTACCCGAGGCTCTCACACGACCAAGGGCCTAGGTTACC
1 GATGGTGCCCGAGGCTCTCACACGACCAAAGGCCTAGGTTACC
* *
34923475 GATGGTGCCCGAGGCTCTCGCGCGACCAAAGGCCTAGGTTACC
1 GATGGTGCCCGAGGCTCTCACACGACCAAAGGCCTAGGTTACC
* *
34923518 GATGGTGTCCGTGGCTC
1 GATGGTGCCCGAGGCTC
34923535 CCGGACATCC
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.18, C:0.31, G:0.32, T:0.18
Consensus pattern (43 bp):
GATGGTGCCCGAGGCTCTCACACGACCAAAGGCCTAGGTTACC
Found at i:34923883 original size:24 final size:24
Alignment explanation
Indices: 34923856--34923923 Score: 118
Period size: 24 Copynumber: 2.8 Consensus size: 24
34923846 TTCTGGGAAC
*
34923856 GCTCGCCAGAGCACCGCCGGGATG
1 GCTCGCCGGAGCACCGCCGGGATG
34923880 GCTCGCCGGAGCACCGCCGGGATG
1 GCTCGCCGGAGCACCGCCGGGATG
*
34923904 TCTCGCCGGAGCACCGCCGG
1 GCTCGCCGGAGCACCGCCGG
34923924 AAACCTAATC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.13, C:0.40, G:0.38, T:0.09
Consensus pattern (24 bp):
GCTCGCCGGAGCACCGCCGGGATG
Found at i:34933629 original size:46 final size:46
Alignment explanation
Indices: 34933528--34933615 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 46
34933518 TGTAACCCGC
* * * *
34933528 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
* *
34933574 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTC
34933616 AACCATCCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.27, C:0.31, G:0.23, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
Found at i:34937156 original size:6 final size:6
Alignment explanation
Indices: 34937147--34937193 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
34937137 AGAAAAAGAA
* **
34937147 AAAAAT -AAAAT AAGAAT AATAAAT ACGAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AA-AAAT AAAAAT AAAAAT AAAAAT AAAAA
34937194 GATAGGAGGA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
5 5 0.15
6 24 0.73
7 4 0.12
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:34940411 original size:76 final size:76
Alignment explanation
Indices: 34940321--34940474 Score: 299
Period size: 76 Copynumber: 2.0 Consensus size: 76
34940311 TGGTAAGTTA
34940321 ATATGTAATTTCTTTAAAAGTTTGACAAACTTACCGAATTGTTCTTCTGTTCTATATTTCGTCAT
1 ATATGTAATTTCTTTAAAAGTTTGACAAACTTACCGAATTGTTCTTCTGTTCTATATTTCGTCAT
34940386 CGCTTTAGGAT
66 CGCTTTAGGAT
*
34940397 ATATGTAATTTCTTTAAGAGTTTGACAAACTTACCGAATTGTTCTTCTGTTCTATATTTCGTCAT
1 ATATGTAATTTCTTTAAAAGTTTGACAAACTTACCGAATTGTTCTTCTGTTCTATATTTCGTCAT
34940462 CGCTTTAGGAT
66 CGCTTTAGGAT
34940473 AT
1 AT
34940475 GGCACACGAG
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 77 1.00
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.45
Consensus pattern (76 bp):
ATATGTAATTTCTTTAAAAGTTTGACAAACTTACCGAATTGTTCTTCTGTTCTATATTTCGTCAT
CGCTTTAGGAT
Found at i:34942404 original size:13 final size:13
Alignment explanation
Indices: 34942382--34942414 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
34942372 AAGGGTTTGT
34942382 TTAT-TAAACTAA
1 TTATCTAAACTAA
34942394 TTATCTAAACTAA
1 TTATCTAAACTAA
*
34942407 TTAACTAA
1 TTATCTAA
34942415 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:34948154 original size:47 final size:50
Alignment explanation
Indices: 34948080--34948212 Score: 165
Period size: 46 Copynumber: 2.8 Consensus size: 50
34948070 AACCCGCCCC
*
34948080 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAGTT-ACAT-C-
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCTCA-TTCACATCCA
* *
34948128 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA----CATTCGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCTCATTCACATCCA
*
34948173 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCTCA
34948213 ACCATCCTAG
Statistics
Matches: 72, Mismatches: 5, Indels: 14
0.79 0.05 0.15
Matches are distributed among these distances:
42 2 0.03
43 5 0.07
44 1 0.01
45 2 0.03
46 29 0.40
47 29 0.40
48 2 0.03
50 2 0.03
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (50 bp):
TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCTCATTCACATCCA
Found at i:34948159 original size:20 final size:20
Alignment explanation
Indices: 34948089--34948161 Score: 56
Period size: 20 Copynumber: 3.3 Consensus size: 20
34948079 CTAAGTGAAC
34948089 TCGGACTCAACTCAACGAGT
1 TCGGACTCAACTCAACGAGT
* **
34948109 TCGGATGCTCAGTTACATCTCACGAAC
1 TCGGA--CTCA---AC-TC-AACGAGT
34948136 TCGGACTCAACTCAACGAGT
1 TCGGACTCAACTCAACGAGT
34948156 TCGGAC
1 TCGGAC
34948162 ATTCGCATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
20 15 0.38
21 2 0.05
22 6 0.15
25 6 0.15
26 2 0.05
27 9 0.22
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (20 bp):
TCGGACTCAACTCAACGAGT
Found at i:34955689 original size:45 final size:45
Alignment explanation
Indices: 34955625--34955837 Score: 417
Period size: 45 Copynumber: 4.7 Consensus size: 45
34955615 AACCCGCCCC
34955625 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCA
34955670 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCA
34955715 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCA
34955760 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCA
*
34955805 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGG
34955838 ATGCTTAACC
Statistics
Matches: 167, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
45 167 1.00
ACGTcount: A:0.27, C:0.28, G:0.24, T:0.20
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCA
Found at i:34962718 original size:43 final size:43
Alignment explanation
Indices: 34962663--34962774 Score: 158
Period size: 43 Copynumber: 2.6 Consensus size: 43
34962653 AATGTCCCTA
* *
34962663 ACGTGGTCTTACATGTA-ATCACATATCGATGCC-ACTATCCCAG
1 ACGTGGTCTTACACG-AGAACACATATCGATGCCAACT-TCCCAG
34962706 ACAG-GGTCTTACACGAGAACACATATCGATGCCAACTTCCCAG
1 AC-GTGGTCTTACACGAGAACACATATCGATGCCAACTTCCCAG
34962749 ACGTGGTCTTACACGAGAACACATAT
1 ACGTGGTCTTACACGAGAACACATAT
34962775 TGATAATCCT
Statistics
Matches: 63, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
42 2 0.03
43 57 0.90
44 4 0.06
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (43 bp):
ACGTGGTCTTACACGAGAACACATATCGATGCCAACTTCCCAG
Found at i:34967368 original size:85 final size:84
Alignment explanation
Indices: 34967266--34967517 Score: 258
Period size: 84 Copynumber: 3.0 Consensus size: 84
34967256 GTTTTTTAGA
* * * * *
34967266 AAAAAAG-GCCGCTAAAGACCACGATCTTTAGCGGC-CTTTTTTATAACAGCGTCGCTGA-AGAC
1 AAAAAAGCGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTTA-AAAAACGCCGCT-ATAGAC
34967328 CAGGACCTTTAGCGGCGCTCTT
64 CAGGACCTTTAGCGGCGCT-TT
* * * *
34967350 AAAAAAGCGCCGCCAAAGACCAGGACCTATAGCGGCGCTTTTTTAAAAAACGCCGCTATAGACCT
1 AAAAAAGCGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTTAAAAAACGCCGCTATAGACCA
* *
34967415 GTACTTTTAGCGGCGCTTT
66 GGACCTTTAGCGGCGCTTT
* * * * * * * * *
34967434 ACAAAAGCGCTGCTATAGACCAAGAGCTTTAGCAGCGCTTCTGTAAAAAAAGCCGCTATAGACCT
1 AAAAAAGCGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTTAAAAAACGCCGCTATAGACCA
* *
34967499 GTACTTTTAGCGGCGCTTT
66 GGACCTTTAGCGGCGCTTT
34967518 TGCAAAAAAA
Statistics
Matches: 144, Mismatches: 21, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
84 83 0.58
85 53 0.37
86 8 0.06
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (84 bp):
AAAAAAGCGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTTAAAAAACGCCGCTATAGACCA
GGACCTTTAGCGGCGCTTT
Found at i:34967413 original size:43 final size:43
Alignment explanation
Indices: 34967266--34967518 Score: 196
Period size: 43 Copynumber: 6.0 Consensus size: 43
34967256 GTTTTTTAGA
* * * *
34967266 AAAAAAGGCCGCTAAAGACCACGATCTTTAGCGGC-CTTTTTT
1 AAAAAACGCCGCTATAGACCAGGACCTTTAGCGGCGCTTTTTT
* * * *
34967308 ATAACAGCGTCGCTGA-AGACCAGGACCTTTAGCGGCGC--TCTT
1 A-AAAAACGCCGCT-ATAGACCAGGACCTTTAGCGGCGCTTTTTT
* * *
34967350 AAAAAAGCGCCGCCAAAGACCAGGACCTATAGCGGCGCTTTTTT
1 AAAAAA-CGCCGCTATAGACCAGGACCTTTAGCGGCGCTTTTTT
* * *
34967394 AAAAAACGCCGCTATAGACCTGTACTTTTAGCGGCGC---TTT
1 AAAAAACGCCGCTATAGACCAGGACCTTTAGCGGCGCTTTTTT
* * * * * * *
34967434 ACAAAAGCGCTGCTATAGACCAAGAGCTTTAGCAGCGCTTCTGT
1 A-AAAAACGCCGCTATAGACCAGGACCTTTAGCGGCGCTTTTTT
* * * *
34967478 AAAAAAAGCCGCTATAGACCTGTACTTTTAGCGGCGCTTTT
1 AAAAAACGCCGCTATAGACCAGGACCTTTAGCGGCGCTTTT
34967519 GCAAAAAAAT
Statistics
Matches: 162, Mismatches: 38, Indels: 21
0.73 0.17 0.10
Matches are distributed among these distances:
40 4 0.02
41 32 0.20
42 31 0.19
43 81 0.50
44 14 0.09
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (43 bp):
AAAAAACGCCGCTATAGACCAGGACCTTTAGCGGCGCTTTTTT
Found at i:34967525 original size:43 final size:43
Alignment explanation
Indices: 34967379--34967535 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 43
34967369 CCAGGACCTA
** *
34967379 TAGCGGCGCTTTTTTAAAAAACGCCGCTATAGACCTGTACTTT
1 TAGCGGCGCTTTTGCAAAAAAAGCCGCTATAGACCTGTACTTT
* ** * *
34967422 TAGCGGCGC-TTTAC-AAAAGCGCTGCTATAGACCAAG-AGC-TT
1 TAGCGGCGCTTTTGCAAAAAAAGCCGCTATAGACC-TGTA-CTTT
* * *
34967463 TAGCAGCGCTTCTGTAAAAAAAGCCGCTATAGACCTGTACTTT
1 TAGCGGCGCTTTTGCAAAAAAAGCCGCTATAGACCTGTACTTT
34967506 TAGCGGCGCTTTTGCAAAAAAATGCCGCTA
1 TAGCGGCGCTTTTGCAAAAAAA-GCCGCTA
34967536 GTTTGCCCAG
Statistics
Matches: 91, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
41 28 0.31
42 9 0.10
43 47 0.52
44 7 0.08
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.27
Consensus pattern (43 bp):
TAGCGGCGCTTTTGCAAAAAAAGCCGCTATAGACCTGTACTTT
Done.